Collection SERGAS
Isolation Year 2017
Isolation Location Hospital Universitario Valencia Tres cruces (Valencia)
Hospital Admission Unit Oncology
Patient Sex M
Patient Age 58
Community/Hospital/LTCF acquisition Community
Biological Sample of Isolation wound
Infection or Colonization I
Outbreak None
Genus/Species
Klebsiella pneumoniae
Carbapenamase type(s) OXA-48
MLST 11:gapA(3), infB(3), mdh(1), pgi(1), phoE(1), rpoB(1), tonB(4)
EDTA Assay (if any) None
PCR Result (if any) None
Agent MIC CLSI EUCAST
Piper >256 R R
P/T >256 R R
CTX >128 R R
CAZ >128 R R
CAZ-AVI 2 S S
CEF 128 R R
AZT >128 R R
MEM 0.5 S S
IMI 0.25 S S
IMI-RELE ≤0.12 S S
ERT 16 R R
FOSFO <32 S S
GENTA ≤0.25 S S
TOBRA ≤0.25 S S
AMK 16 S R
CIP 128 R R
COLIS <0.06 WT S
AI2776_v1
AI2776_v1

Sample 421 was assembled with Unicycler_v0.4.6 into 6 scaffolds, 6 of which are closed circles. More details can be found in the table below. Raw data such as the assembly FASTA and annotation files can be downloaded from the "Raw Data" box. The assembly can be browsed by clicking on the "Browse" link for each scaffold.

Scaffold Sample ST Jbrowse Resistance Genes All Genes Scaffold length Circular Est. Copy Number Species GC content Mobility Replicon type Replicon type accession Relaxase type Relaxase type accession MPF type Mpf type accession OriT type OriT accession MASH nearest neighbor MASH neighbor distance MASH neighbor cluster
AI2776_v1_c1 421 11 Browse 32 5028 5379436 1.00
Klebsiella pneumoniae
57.44 Non-mobilizable - - - - MPF_T NC_010726_00014, NC_005814_00013, NC_010726_00011, NC_013284_00016 - - CP015754 0.20360400 1583
AI2776_v1_c2 421 11 Browse 28 178 173773 2.51
Escherichia coli
52.50 Conjugative IncFII, IncFIB, IncFIIA, IncQ1 000136__AP014877_00014, 000121__CP024805, 000095__NZ_CP014273_00094, 000195__NC_013728_00014 MOBF NC_017627_00068 MPF_F NC_008460_00107, NC_010488_00021, NC_017639_00100, NC_007675_00027, NC_013437_00116, NC_017639_00094, NC_019094_00090, NC_010409_00124, NC_022651_00077, 08-5333_00200, NC_014615_00033, NC_018966_00040 MOBF FN868248 CP020934 0.02951790 973
AI2776_v1_c3 421 11 Browse 1 80 63660 2.31
Klebsiella pneumoniae
51.04 Conjugative IncL/M 000148__NC_021488_00028 MOBP NC_004464_00056 MPF_I NC_004464_00105, NC_005246_00057, NC_019063_00094, NC_019344_00078, NC_004464_00066, NC_004464_00068, NC_019154_00069, NC_005246_00069, NC_004464_00073 - - KY213890 0.00235330 681
AI2776_v1_c4 421 11 Browse 0 11 9294 6.81
Klebsiella pneumoniae
55.14 Mobilizable ColRNAI_rep_cluster_1857 000003__NC_002119_00001 MOBC NC_009793_00003 - - - - MF150124 0.00019163 762
AI2776_v1_c5 421 11 Browse 0 7 6647 6.53
Klebsiella pneumoniae
48.55 Mobilizable ColRNAI_rep_cluster_1857 000008__AJ627566 MOBP NC_019076_00002 - - MOBP MF083142 CP016519 0.00028831 23
AI2776_v1_c6 421 11 Browse 0 2 2496 9.59
Enterobacter hormaechei
51.52 Mobilizable ColRNAI_rep_cluster_1987 000019__CP000651_00005 - - - - MOBP, MOB_unknown NC_017722, CP001388 CP010389 0.02795550 215